data_6S5D # _model_server_result.job_id HL7r4GFackksoqPXus4cgg _model_server_result.datetime_utc '2024-11-04 22:50:31' _model_server_result.server_version 0.9.12 _model_server_result.query_name ligand _model_server_result.source_id pdb-bcif _model_server_result.entry_id 6s5d # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":601}' # _entry.id 6S5D # _exptl.entry_id 6S5D _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 507.181 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "ADENOSINE-5'-TRIPHOSPHATE" _entity.pdbx_number_of_molecules 2 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 90 _cell.angle_gamma 90 _cell.entry_id 6S5D _cell.length_a 121.572 _cell.length_b 121.572 _cell.length_c 83.726 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6S5D _symmetry.cell_setting ? _symmetry.Int_Tables_number 79 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'I 4' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details octameric _pdbx_struct_assembly.oligomeric_count 8 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,C,D,E,F,G 1 1 A,B,C,D,E,F,G 1 2 A,B,C,D,E,F,G 1 3 A,B,C,D,E,F,G 1 4 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 2_775 -x+2,-y+2,z -1 0 0 0 -1 0 0 0 1 243.144 243.144 0 3 'crystal symmetry operation' 3_755 -y+2,x,z 0 -1 0 1 0 0 0 0 1 243.144 0 0 4 'crystal symmetry operation' 4_575 y,-x+2,z 0 1 0 -1 0 0 0 0 1 0 243.144 0 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 C N N ? 2 E N N # loop_ _struct_conn.conn_type_id _struct_conn.details _struct_conn.id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_atom_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_atom_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_PDB_id _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order metalc ? metalc1 A OE2 GLU 125 A GLU 125 1_555 D MG MG . A MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.372 ? metalc ? metalc2 C O2G ATP . A ATP 601 1_555 D MG MG . A MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.388 ? metalc ? metalc3 D MG MG . A MG 602 1_555 F O HOH . A HOH 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? metalc ? metalc4 D MG MG . A MG 602 1_555 B OE2 GLU 125 B GLU 125 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.281 ? metalc ? metalc5 D MG MG . A MG 602 1_555 E O2G ATP . B ATP 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.196 ? metalc ? metalc6 D MG MG . A MG 602 1_555 G O HOH . B HOH 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? # _chem_comp.formula 'C10 H16 N5 O13 P3' _chem_comp.formula_weight 507.181 _chem_comp.id ATP _chem_comp.mon_nstd_flag . _chem_comp.name "ADENOSINE-5'-TRIPHOSPHATE" _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # loop_ _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.comp_id _chem_comp_bond.value_order _chem_comp_bond.pdbx_ordinal _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_aromatic_flag PG O1G ATP doub 70 n n PG O2G ATP sing 71 n n PG O3G ATP sing 72 n n PG O3B ATP sing 73 n n O2G HOG2 ATP sing 74 n n O3G HOG3 ATP sing 75 n n PB O1B ATP doub 76 n n PB O2B ATP sing 77 n n PB O3B ATP sing 78 n n PB O3A ATP sing 79 n n O2B HOB2 ATP sing 80 n n PA O1A ATP doub 81 n n PA O2A ATP sing 82 n n PA O3A ATP sing 83 n n PA O5' ATP sing 84 n n O2A HOA2 ATP sing 85 n n O5' C5' ATP sing 86 n n C5' C4' ATP sing 87 n n C5' "H5'1" ATP sing 88 n n C5' "H5'2" ATP sing 89 n n C4' O4' ATP sing 90 n n C4' C3' ATP sing 91 n n C4' H4' ATP sing 92 n n O4' C1' ATP sing 93 n n C3' O3' ATP sing 94 n n C3' C2' ATP sing 95 n n C3' H3' ATP sing 96 n n O3' HO3' ATP sing 97 n n C2' O2' ATP sing 98 n n C2' C1' ATP sing 99 n n C2' H2' ATP sing 100 n n O2' HO2' ATP sing 101 n n C1' N9 ATP sing 102 n n C1' H1' ATP sing 103 n n N9 C8 ATP sing 104 n y N9 C4 ATP sing 105 n y C8 N7 ATP doub 106 n y C8 H8 ATP sing 107 n n N7 C5 ATP sing 108 n y C5 C6 ATP sing 109 n y C5 C4 ATP doub 110 n y C6 N6 ATP sing 111 n n C6 N1 ATP doub 112 n y N6 HN61 ATP sing 113 n n N6 HN62 ATP sing 114 n n N1 C2 ATP sing 115 n y C2 N3 ATP doub 116 n y C2 H2 ATP sing 117 n n N3 C4 ATP sing 118 n y # _atom_sites.entry_id 6S5D _atom_sites.fract_transf_matrix[1][1] 0.008226 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.008226 _atom_sites.fract_transf_matrix[2][3] 0 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 0.011944 _atom_sites.fract_transf_vector[1] 0 _atom_sites.fract_transf_vector[2] 0 _atom_sites.fract_transf_vector[3] 0 # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_id _pdbx_nonpoly_scheme.pdb_strand_id _pdbx_nonpoly_scheme.ndb_seq_num _pdbx_nonpoly_scheme.pdb_seq_num _pdbx_nonpoly_scheme.auth_seq_num _pdbx_nonpoly_scheme.pdb_mon_id _pdbx_nonpoly_scheme.auth_mon_id _pdbx_nonpoly_scheme.pdb_ins_code C 2 ATP A 1 601 601 ATP ATP . D 3 MG A 1 602 1 MG MG . E 2 ATP B 1 601 601 ATP ATP . F 4 HOH A 1 701 2 HOH HOH . G 4 HOH B 1 701 1 HOH HOH . # loop_ _atom_site.group_PDB _atom_site.id _atom_site.type_symbol _atom_site.label_atom_id _atom_site.label_comp_id _atom_site.label_seq_id _atom_site.label_alt_id _atom_site.pdbx_PDB_ins_code _atom_site.label_asym_id _atom_site.label_entity_id _atom_site.Cartn_x _atom_site.Cartn_y _atom_site.Cartn_z _atom_site.occupancy _atom_site.B_iso_or_equiv _atom_site.pdbx_formal_charge _atom_site.auth_atom_id _atom_site.auth_comp_id _atom_site.auth_seq_id _atom_site.auth_asym_id _atom_site.pdbx_PDB_model_num HETATM 1 P PG ATP . . . C 2 143.019 110.692 4.944 1 181.23 ? PG ATP 601 A 1 HETATM 2 O O1G ATP . . . C 2 141.727 109.911 4.964 1 169.24 ? O1G ATP 601 A 1 HETATM 3 O O2G ATP . . . C 2 143.703 110.684 3.597 1 179.95 ? O2G ATP 601 A 1 HETATM 4 O O3G ATP . . . C 2 143.93 110.424 6.119 1 152.4 ? O3G ATP 601 A 1 HETATM 5 P PB ATP . . . C 2 141.34 112.934 4.418 1 211.02 ? PB ATP 601 A 1 HETATM 6 O O1B ATP . . . C 2 141.824 113.515 3.109 1 172.12 ? O1B ATP 601 A 1 HETATM 7 O O2B ATP . . . C 2 140.145 112.01 4.422 1 194.86 ? O2B ATP 601 A 1 HETATM 8 O O3B ATP . . . C 2 142.608 112.238 5.135 1 176.96 ? O3B ATP 601 A 1 HETATM 9 P PA ATP . . . C 2 139.837 114.163 6.464 1 205.9 ? PA ATP 601 A 1 HETATM 10 O O1A ATP . . . C 2 139.599 112.751 6.946 1 194.36 ? O1A ATP 601 A 1 HETATM 11 O O2A ATP . . . C 2 138.686 114.94 5.872 1 175.54 ? O2A ATP 601 A 1 HETATM 12 O O3A ATP . . . C 2 141.082 114.151 5.442 1 198.41 ? O3A ATP 601 A 1 HETATM 13 O O5' ATP . . . C 2 140.432 114.971 7.722 1 180 ? O5' ATP 601 A 1 HETATM 14 C C5' ATP . . . C 2 141.134 114.24 8.726 1 175.61 ? C5' ATP 601 A 1 HETATM 15 C C4' ATP . . . C 2 140.645 114.624 10.115 1 162.28 ? C4' ATP 601 A 1 HETATM 16 O O4' ATP . . . C 2 140.87 116.01 10.377 1 159.97 ? O4' ATP 601 A 1 HETATM 17 C C3' ATP . . . C 2 139.15 114.377 10.266 1 176.05 ? C3' ATP 601 A 1 HETATM 18 O O3' ATP . . . C 2 138.929 113.31 11.189 1 182.88 ? O3' ATP 601 A 1 HETATM 19 C C2' ATP . . . C 2 138.577 115.659 10.832 1 159.9 ? C2' ATP 601 A 1 HETATM 20 O O2' ATP . . . C 2 137.78 115.388 11.988 1 136.91 ? O2' ATP 601 A 1 HETATM 21 C C1' ATP . . . C 2 139.799 116.49 11.192 1 164.31 ? C1' ATP 601 A 1 HETATM 22 N N9 ATP . . . C 2 139.523 117.936 11.001 1 163.56 ? N9 ATP 601 A 1 HETATM 23 C C8 ATP . . . C 2 138.89 118.509 9.957 1 138.28 ? C8 ATP 601 A 1 HETATM 24 N N7 ATP . . . C 2 138.796 119.855 10.121 1 99.62 ? N7 ATP 601 A 1 HETATM 25 C C5 ATP . . . C 2 139.373 120.154 11.3 1 100.25 ? C5 ATP 601 A 1 HETATM 26 C C6 ATP . . . C 2 139.618 121.381 12.084 1 95.54 ? C6 ATP 601 A 1 HETATM 27 N N6 ATP . . . C 2 139.212 122.586 11.619 1 93.34 ? N6 ATP 601 A 1 HETATM 28 N N1 ATP . . . C 2 140.256 121.252 13.271 1 115.62 ? N1 ATP 601 A 1 HETATM 29 C C2 ATP . . . C 2 140.662 120.055 13.739 1 106.47 ? C2 ATP 601 A 1 HETATM 30 N N3 ATP . . . C 2 140.473 118.9 13.081 1 102.34 ? N3 ATP 601 A 1 HETATM 31 C C4 ATP . . . C 2 139.842 118.886 11.88 1 134.6 ? C4 ATP 601 A 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 274 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 31 #